Import New Samples
ICA Cohorts can pull any molecular data available in an ICA Project, as well as additional sample- and subject-level metadata information such as demographics, biometrics, sequencing technology, phenotypes, and diseases.
To import a new data set, select
Import filesfrom the left navigation tab underneath
Confirm that the project shown is the ICA Project that contains the molecular data you would like to add to ICA Cohorts.
Choose a data type among
Choose a study name among existing studies, or create a new study. Studies are used to help sub-divide and structure any project data further, where needed.
Once done, click on
Nextto proceed to selecting molecular data files, either in VCF.gz or Nirvana JSON.gz format, from our ICA Project's data folder.
The sample identifiers used in the VCF columns need to match the sample identifiers used in subject/sample metadata files; accordingly, if you are starting from JSON files containing variant- and gene-level annotations provide by ILMN Nirvana, the
sampleslisted in the header need to match the metadata files.
Note: If annotating large sets of samples with molecular data, expect the annotation process to take over 20 minutes per whole genome sample. You will receive an email both when your ingestion begins and when it is complete.